Table 3.
Average expression data of upregulated genes during EXP/STA1 comparison based on resultant FDR value from the RP analysis equal or less to 0.05 in compared growth phases during SA production cultures
| Gene | Locus | Protein name a | Cellular function b | Average expression |
|---|---|---|---|---|
|
asnA |
b3744 |
Asparagine synthetase A |
Amino acid metabolism |
28.5470 |
|
aspA |
b4139 |
Aspartate ammonia-lyase |
Amino acid metabolism |
5.7446 |
|
gcvH |
b2904 |
Glycine cleavage system H protein |
Amino acid metabolism |
7.2457 |
|
gcvP |
b2903 |
Glycine decarboxylase |
Amino acid metabolism |
12.2509 |
|
gcvT |
b2905 |
Aminomethyltransferase |
Amino acid metabolism |
12.0966 |
|
putA |
b1014 |
Fused PutA DNA-binding transcriptional repressor/proline dehydrogenase/ 1-pyrroline-5-carboxylate dehydrogenase |
Amino acid metabolism |
11.8149 |
|
sdaB |
b2797 |
L-serine deaminase II |
Amino acid metabolism |
8.2308 |
|
tnaA |
b3708 |
L-cysteine desulfhydrase/tryptophanase |
Amino acid metabolism |
60.3464 |
|
tnaL |
b3707 |
tna operon leader peptide |
Amino acid metabolism |
91.7140 |
|
atpG |
b3733 |
ATP synthase F1 complex - gamma subunit |
ATP biosynthetic/catabolic process |
5.5487 |
|
fecE |
b4287 |
Ferric dicitrate ABC transporter - ATP binding subunit |
ATP biosynthetic/catabolic process |
7.0184 |
|
ompT |
b0565 |
OM protease VII (OM protein 3b) |
Catalytic activity |
6.0698 |
|
groS |
B4142 |
Polypeptide: GroES, chaperone binds to Hsp60 in pres. Mg-ATP, suppressing its ATPase activity |
Cell processes |
5.9806 |
|
cyoB |
b0431 |
Cytochrome bo terminal oxidase subunit I |
Electron carrier activity |
6.3920 |
|
cyoD |
b0429 |
Cytochrome bo terminal oxidase subunit IV |
Electron carrier activity |
6.6316 |
|
gpt |
b0238 |
Xanthine-guanine phosphoribosyltransferase |
Nucleotide/nucleoside metabolism |
6.4026 |
|
guaC |
b0104 |
GMP reductase |
Nucleotide/nucleoside metabolism |
6.7694 |
|
pyrB |
b4245 |
Aspartate carbamoyltransferase, catalytic subunit |
Nucleotide/nucleoside metabolism |
10.8487 |
|
rihA |
b0651 |
Ribonucleoside hydrolase 1 (pyrimidine-specific) |
Nucleotide/nucleoside metabolism |
5.9568 |
|
upp |
b2498 |
Uracil phosphoribosyltransferase |
Nucleotide/nucleoside metabolism |
5.4210 |
|
yliF |
b0834 |
Predicted diguanylate cyclase |
Nucleotide/nucleoside metabolism |
5.6595 |
|
nlpA |
b3661 |
Lipoprotein-28 |
Out of GOs |
7.2359 |
|
yieI |
b3716 |
Predicted IM protein |
Out of GOs |
6.6363 |
|
gcvB |
b4443 |
GcvB small regulatory RNA |
Regulatory |
7.4984 |
|
yeeN |
b1983 |
Conserved protein |
Regulatory |
5.3142 |
|
rihA |
b4142 |
GroES, chaperone binds to Hsp60 in pres. Mg-ATP, suppressing its ATPase activity |
Stress response |
5.9806 |
|
cyoE |
b0428 |
Heme O synthase |
Structural molecule activity |
5.9183 |
|
cysC |
B2750 |
Adenylylsulfate kinase |
Sulfur metabolism |
7.0141 |
|
cysH |
b2762 |
3′-Phospho-adenylylsulfate reductase |
Sulfur metabolism |
11.2772 |
|
cirA |
b2155 |
OM receptor involved in uptake of ferric dihyroxybenzoylserine |
Transport |
9.4700 |
|
fecA |
b4291 |
Ferric citrate OMP FecA |
Transport |
19.9369 |
|
fecB |
b4290 |
Ferric dicitrate ABC transporter - periplasmic binding protein |
Transport |
14.5864 |
|
fruB |
b2169 |
Fructose PTS permease - FruB subunit |
Transport |
5.8528 |
|
glpT |
b2240 |
GlpT glycerol-3-P MFS transporter |
Transport |
8.6190 |
|
lamB |
b4036 |
Phage lambda receptor protein; maltose high-affinity receptor |
Transport |
18.0411 |
|
livK |
b3458 |
Leucine ABC transporter - periplasmic binding protein |
Transport |
6.0726 |
|
malE |
b4034 |
Maltose ABC transporter - periplasmic binding protein |
Transport |
174.0512 |
|
malF |
b4033 |
Maltose ABC transporter - membrane subunit |
Transport |
19.1719 |
|
malK |
b4035 |
Maltose ABC transporter - ATP binding subunit |
Transport |
14.8026 |
|
nmpC |
b0553 |
OMP protein; locus of qsr prophage |
Transport |
11.7561 |
|
proX |
b2679 |
Glycine betaine/proline ABC transporter - periplasmic binding protein |
Transport |
7.3363 |
|
sbp |
b3917 |
Sulfate/thiosulfate ABC transporter - periplasmic binding protein Sbp |
Transport |
11.2712 |
|
tnaB |
b3709 |
TnaB tryptophan ArAAP transporter |
Transport |
9.9672 |
| tsx | b0411 | Nucleoside channel; receptor of phage T6 and colicin K | Transport | 6.2757 |
aRetrieved from EcoCyc database, bBiological functions were assigned according to the EcoCyc database for E. coli strain MG1655 and broadly grouped on the basis of GO terms [17].